Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 47 of 356
Found at i:15165036 original size:32 final size:32
Alignment explanation
Indices: 15164984--15165056 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
15164974 TCGTAAACTT
*
15164984 ATAAATTGATTACTTGAATTT-AGTAACTCATG
1 ATAAATTGATTAATTGAATTTGA-TAACTCATG
*
15165016 ATAAATTGATTAATAT-AATTTGATAACTCTTG
1 ATAAATTGATTAAT-TGAATTTGATAACTCATG
*
15165048 ATTAATTGA
1 ATAAATTGA
15165057 ACTTGTTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (32 bp):
ATAAATTGATTAATTGAATTTGATAACTCATG
Found at i:15165568 original size:39 final size:39
Alignment explanation
Indices: 15165517--15165595 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
15165507 AATGAGTTTC
15165517 TTTGGTAATCTCTATGCTCATTTTATGTAAGGGTAAAGT
1 TTTGGTAATCTCTATGCTCATTTTATGTAAGGGTAAAGT
15165556 TTTGGTAATCTCTATGCTCATTTTATGTAAGGGTAAAGT
1 TTTGGTAATCTCTATGCTCATTTTATGTAAGGGTAAAGT
15165595 T
1 T
15165596 AGAAATGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.44
Consensus pattern (39 bp):
TTTGGTAATCTCTATGCTCATTTTATGTAAGGGTAAAGT
Found at i:15167904 original size:11 final size:11
Alignment explanation
Indices: 15167864--15167910 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
15167854 CTTATAATTC
15167864 TTAATACATT-T
1 TTAATA-ATTAT
*
15167875 TAAATAATTAT
1 TTAATAATTAT
*
15167886 GT-ATAATTAT
1 TTAATAATTAT
15167896 TTAATAATTAT
1 TTAATAATTAT
15167907 TTAA
1 TTAA
15167911 GAAACAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (11 bp):
TTAATAATTAT
Found at i:15167989 original size:32 final size:32
Alignment explanation
Indices: 15167926--15167989 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
15167916 AATTCTAGAA
* ** *
15167926 TGAACCTAGACAAACATTTGTCTAAGCTCATT
1 TGAACCTAAACAAACACGTGTCCAAGCTCATT
* *
15167958 TGAACCTAAACAACCACGTGTCCAAGTTCATT
1 TGAACCTAAACAAACACGTGTCCAAGCTCATT
15167990 CTAAATATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (32 bp):
TGAACCTAAACAAACACGTGTCCAAGCTCATT
Found at i:15170238 original size:23 final size:24
Alignment explanation
Indices: 15170203--15170248 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
15170193 AAGTGTTGAC
15170203 AAAAAATTAAATTAAATTAAAATTT
1 AAAAAATTAAATTAAA-TAAAATTT
15170228 AAAAAA-T-AATTAAATAAAATT
1 AAAAAATTAAATTAAATAAAATT
15170249 CTATTTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 7 0.33
24 1 0.05
25 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAAATTAAATTAAATAAAATTT
Found at i:15173887 original size:42 final size:42
Alignment explanation
Indices: 15173808--15173889 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
15173798 CGAAGGCTAC
* ***
15173808 ACAGAAGCACATAAGTGCTAAACGGAAACCTGTAAGGGTTGA
1 ACAGAAGCACATAAGAGCTAAACGGAAACCCAAAAGGGTTGA
* * *
15173850 ACAGAAGCTCATAGGAGCTAAACGGGAACCCAAAAGGGTT
1 ACAGAAGCACATAAGAGCTAAACGGAAACCCAAAAGGGTT
15173890 AAATTGAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (42 bp):
ACAGAAGCACATAAGAGCTAAACGGAAACCCAAAAGGGTTGA
Found at i:15179396 original size:17 final size:21
Alignment explanation
Indices: 15179354--15179396 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15179344 GGTTGGAAAA
15179354 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
15179375 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
15179392 TGAAA
1 TGAAA
15179397 ATTTTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:15179398 original size:18 final size:20
Alignment explanation
Indices: 15179354--15179398 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
15179344 GGTTGGAAAA
*
15179354 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
15179375 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
15179392 TGAAAAT
1 TGAAAAT
15179399 TTTTAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:15186213 original size:53 final size:52
Alignment explanation
Indices: 15186088--15186234 Score: 161
Period size: 53 Copynumber: 2.8 Consensus size: 52
15186078 ATTTATGTTT
* * ** *
15186088 CCGTATAAGACCATATCCGAGCTATGGCATCGGTACAATATGATTTGCGTTC
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGATATGCGTTC
* * * * *
15186140 CCGTATAAGACTATAACTGGGCTATGGCATCGGTGTGATGTGATAATGTGATT-
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGAT-ATGCG-TTC
* *
15186193 CTGTATAAGACCATATCTGGGATATGGCATCGGTATGATATG
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATG
15186235 TAATCCGTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 36 0.47
53 39 0.51
54 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (52 bp):
CCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATATGATATGCGTTC
Found at i:15186812 original size:17 final size:21
Alignment explanation
Indices: 15186770--15186812 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15186760 GATTGGAAAA
15186770 TGAAATATACTTGTTTTGGCT
1 TGAAATATACTTGTTTTGGCT
15186791 TGAAATA-A-TTG-TTTGG-T
1 TGAAATATACTTGTTTTGGCT
15186808 TGAAA
1 TGAAA
15186813 ATTTTTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 5 0.23
19 3 0.14
20 1 0.05
21 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TGAAATATACTTGTTTTGGCT
Found at i:15186814 original size:18 final size:20
Alignment explanation
Indices: 15186770--15186814 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
15186760 GATTGGAAAA
*
15186770 TGAAATATACTTGTTTTGGCT
1 TGAAA-ATAATTGTTTTGGCT
15186791 TG-AAATAATTG-TTTGG-T
1 TGAAAATAATTGTTTTGGCT
15186808 TGAAAAT
1 TGAAAAT
15186815 TTTTAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 3 0.14
18 9 0.41
19 6 0.27
20 2 0.09
21 2 0.09
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.44
Consensus pattern (20 bp):
TGAAAATAATTGTTTTGGCT
Found at i:15191250 original size:12 final size:12
Alignment explanation
Indices: 15191233--15191266 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15191223 GTGTGTCAAA
15191233 TACTGTTACAGT
1 TACTGTTACAGT
*
15191245 TACTGTTACCGT
1 TACTGTTACAGT
15191257 TACTGTTACA
1 TACTGTTACA
15191267 AATTTAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (12 bp):
TACTGTTACAGT
Found at i:15191328 original size:18 final size:18
Alignment explanation
Indices: 15191291--15191330 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15191281 TGTGATGAAA
* **
15191291 ATTGTTACTGTTACTGTT
1 ATTGTTACTGCTACCATT
15191309 ATTGTTACTGCTACCATT
1 ATTGTTACTGCTACCATT
15191327 ATTG
1 ATTG
15191331 ACTACTGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (18 bp):
ATTGTTACTGCTACCATT
Found at i:15194085 original size:11 final size:11
Alignment explanation
Indices: 15194071--15194115 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
15194061 AGATAAATAT
15194071 TATTTTATTAA
1 TATTTTATTAA
*
15194082 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
15194095 TATTTTATTAT
1 TATTTTATTAA
15194106 TATTTTATTA
1 TATTTTATTA
15194116 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:15195916 original size:46 final size:46
Alignment explanation
Indices: 15195864--15195954 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
15195854 GCTTTCTGAA
15195864 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
15195910 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA
15195955 CGGGAAATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:15198800 original size:46 final size:46
Alignment explanation
Indices: 15198725--15198886 Score: 213
Period size: 46 Copynumber: 3.5 Consensus size: 46
15198715 CGTTACAAAA
* *
15198725 ACCATGGTTG-AAGATACTATAG-AAGCGTGACATGAAATGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAA-CGTGACATGAAATGAATAAG
*
15198770 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
* *
15198816 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGAATAAG
* * *
15198862 ACCATAGTTGAAAGACACTATGGCA
1 ACCATGGTTGAAAGATACCATGGCA
15198887 TCATGTCTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
45 11 0.10
46 92 0.88
47 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAG
Found at i:15199193 original size:16 final size:17
Alignment explanation
Indices: 15199172--15199204 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15199162 ATGATGGAGC
15199172 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
15199188 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
15199205 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:15202606 original size:31 final size:32
Alignment explanation
Indices: 15202568--15202627 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
15202558 ATTATTGGAT
15202568 TATTCGAAAG-CTTTCATTTAAGTCATTAAAC
1 TATTCGAAAGTCTTTCATTTAAGTCATTAAAC
* **
15202599 TATTCGAAAGTTTTTTGTTTAAGTCATTA
1 TATTCGAAAGTCTTTCATTTAAGTCATTA
15202628 GGTTGTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (32 bp):
TATTCGAAAGTCTTTCATTTAAGTCATTAAAC
Found at i:15208621 original size:25 final size:26
Alignment explanation
Indices: 15208593--15208642 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
15208583 ATTCTTTATA
15208593 TTATTT-TTAAAAATTTTATATATTT
1 TTATTTATTAAAAATTTTATATATTT
*
15208618 TTATTTATTAAAATTTTTATATATT
1 TTATTTATTAAAAATTTTATATATT
15208643 CACATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTATTTATTAAAAATTTTATATATTT
Found at i:15208734 original size:16 final size:16
Alignment explanation
Indices: 15208713--15208756 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
15208703 TTTTATGTAT
15208713 TATAAATTATATAATA
1 TATAAATTATATAATA
*
15208729 TATAAATAATATAATA
1 TATAAATTATATAATA
*
15208745 TAAAATATTATA
1 TATAA-ATTATA
15208757 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATTATATAATA
Found at i:15210513 original size:42 final size:45
Alignment explanation
Indices: 15210466--15210569 Score: 142
Period size: 48 Copynumber: 2.3 Consensus size: 45
15210456 ATAATAATGT
15210466 CAGCTATGGTCTTACAC-AT-AT-TCACATATCGATGCCATAGCC
1 CAGCTATGGTCTTACACGATCATATCACATATCGATGCCATAGCC
15210508 CAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCATAGCC
1 CAGCTATGGTCTTACAC-GAT--CATATCACATATCGATGCCATAGCC
**
15210556 CAAATATGGTCTTA
1 CAGCTATGGTCTTA
15210570 TACAGTAGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
42 17 0.31
44 2 0.04
47 2 0.04
48 33 0.61
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (45 bp):
CAGCTATGGTCTTACACGATCATATCACATATCGATGCCATAGCC
Found at i:15210673 original size:31 final size:31
Alignment explanation
Indices: 15210638--15210755 Score: 130
Period size: 31 Copynumber: 3.8 Consensus size: 31
15210628 CTTGTCACTT
*
15210638 GTAGCCGAAGTTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * * *
15210669 GTAGCAGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * *
15210700 GTAGTCGGAGCTACCA-AATTTCACTGATCAG
1 GTAGCCGAAGCTACCACTA-TTCACTGATCAG
* *
15210731 GTAGCCAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTATTCACT
15210756 TGCCATTTGT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:15210833 original size:50 final size:51
Alignment explanation
Indices: 15210731--15210856 Score: 191
Period size: 50 Copynumber: 2.5 Consensus size: 51
15210721 CACTGATCAG
* * * *
15210731 GTAGCCAAAGCTACCACTTTTCACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGCCACTTGTCCTTGATCAGATAAGT
* *
15210782 GTAGCTGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGCCACTTGTCCTTGATCAGATAAGT
15210832 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
15210857 GGTTGCCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
50 46 0.68
51 22 0.32
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGCCACTTGTCCTTGATCAGATAAGT
Found at i:15216233 original size:7 final size:7
Alignment explanation
Indices: 15216221--15216247 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15216211 AAAATTGAAT
15216221 TTTTATA
1 TTTTATA
15216228 TTTTATA
1 TTTTATA
15216235 TTTTATA
1 TTTTATA
15216242 TTTTAT
1 TTTTAT
15216248 TTTCTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:15216255 original size:14 final size:13
Alignment explanation
Indices: 15216219--15216255 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
15216209 TAAAAATTGA
15216219 ATTTTTATATTTT
1 ATTTTTATATTTT
15216232 ATATTTTATATTTT
1 AT-TTTTATATTTT
15216246 ATTTTCTATA
1 ATTTT-TATA
15216256 ATAACTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATATTTT
Found at i:15219620 original size:21 final size:21
Alignment explanation
Indices: 15219596--15219647 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
15219586 AATCAAATCT
15219596 AAATTAAAATACTAAAATTCA
1 AAATTAAAATACTAAAATTCA
* *
15219617 AAA-TAAAATTCTGAAATTCA
1 AAATTAAAATACTAAAATTCA
* *
15219637 AGATAAAAATA
1 AAATTAAAATA
15219648 ATAATGTGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.27
Consensus pattern (21 bp):
AAATTAAAATACTAAAATTCA
Found at i:15219623 original size:20 final size:20
Alignment explanation
Indices: 15219600--15219644 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15219590 AAATCTAAAT
15219600 TAAAATACTAAAATTCAAAA
1 TAAAATACTAAAATTCAAAA
* * *
15219620 TAAAATTCTGAAATTCAAGA
1 TAAAATACTAAAATTCAAAA
15219640 TAAAA
1 TAAAA
15219645 ATAATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAAA
Found at i:15225376 original size:23 final size:22
Alignment explanation
Indices: 15225324--15225376 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
15225314 TCCACGTCTT
*
15225324 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
15225346 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
15225369 TTTCTTTT
1 TTTCTTTT
15225377 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:15238410 original size:23 final size:22
Alignment explanation
Indices: 15238384--15238432 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15238374 TATTCAGATT
*
15238384 TTAAACATAATATTATT-GAAAAA
1 TTAAACATAA-ATT-TTAAAAAAA
*
15238407 TTAATCATAAATTTTAAAAAAA
1 TTAAACATAAATTTTAAAAAAA
15238429 TTAA
1 TTAA
15238433 TTTTAATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAACATAAATTTTAAAAAAA
Found at i:15242757 original size:63 final size:63
Alignment explanation
Indices: 15242658--15242785 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
15242648 ATGGTTGTTA
15242658 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
1 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
15242721 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
1 AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
15242784 AA
1 AA
15242786 TTTTAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (63 bp):
AAAAATCAGTATATAATAACAAATTTAGCCTTCAACTTTTACATTTTATTTAAATTTATTCAT
Found at i:15243955 original size:22 final size:20
Alignment explanation
Indices: 15243930--15243973 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
15243920 ATTATCAACA
15243930 ATTTTATAATAATTAAATATAT
1 ATTTTATAAT-ATTAAAT-TAT
* *
15243952 ATTTTAAAATTTTAAATTAT
1 ATTTTATAATATTAAATTAT
15243972 AT
1 AT
15243974 AATTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTATAATATTAAATTAT
Found at i:15246178 original size:16 final size:16
Alignment explanation
Indices: 15246157--15246191 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15246147 ATTTCAAGTC
15246157 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
15246173 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
15246189 TTA
1 TTA
15246192 GTCAAAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
TTACAGCCTATTAATT
Found at i:15248627 original size:106 final size:106
Alignment explanation
Indices: 15248457--15248657 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
15248447 AAGCTTTAAG
*
15248457 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
15248522 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
15248563 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
15248628 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
15248658 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:15260081 original size:14 final size:16
Alignment explanation
Indices: 15260062--15260099 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
15260052 GAAGATTTTA
15260062 AAATTTTAATAT-T-T
1 AAATTTTAATATGTGT
*
15260076 AAATTTTATTATGTGT
1 AAATTTTAATATGTGT
15260092 AAATTTTA
1 AAATTTTA
15260100 TCACTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
AAATTTTAATATGTGT
Found at i:15266185 original size:40 final size:40
Alignment explanation
Indices: 15266141--15266220 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
15266131 TTTATAAACC
15266141 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
1 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
* *
15266181 AAATTTAAGGTGTGGTTTTACTGTAAGCATACAGGTCAGT
1 AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
15266221 TATAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (40 bp):
AAATTTAAGGTGCGGTTTTACTATAAGCATACAGGTCAGT
Found at i:15267695 original size:34 final size:34
Alignment explanation
Indices: 15267657--15267725 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
15267647 ACTGGCCATT
15267657 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
1 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
15267691 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
1 TTCGATCATAAAATAGCACAAAATAGGCATAAAA
15267725 T
1 T
15267726 GCATTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (34 bp):
TTCGATCATAAAATAGCACAAAATAGGCATAAAA
Found at i:15276992 original size:21 final size:21
Alignment explanation
Indices: 15276966--15277006 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15276956 AGACGAGCAC
* *
15276966 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15276987 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15277007 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15293791 original size:15 final size:15
Alignment explanation
Indices: 15293771--15293878 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
15293761 TTTATGGAAA
15293771 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15293786 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
15293800 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15293816 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15293830 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
15293846 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
15293860 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15293876 ATC
1 ATC
15293879 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15293800 original size:30 final size:30
Alignment explanation
Indices: 15293764--15293878 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
15293754 ATCCATATTT
*
15293764 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
15293794 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15293824 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
15293854 TTAGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
15293879 GAGATATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:15298485 original size:15 final size:15
Alignment explanation
Indices: 15298465--15298542 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
15298455 TTTATGGAAA
15298465 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15298480 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
15298494 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15298510 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15298524 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15298540 ATC
1 ATC
15298543 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15298494 original size:30 final size:30
Alignment explanation
Indices: 15298458--15298542 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
15298448 ATCCATATTT
*
15298458 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
15298488 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15298518 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
15298543 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:15301212 original size:25 final size:24
Alignment explanation
Indices: 15301167--15301214 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
15301157 TTACGAGCAT
*
15301167 CTCGATATTGGCTCACTTGAGCTA
1 CTCGATATTGGCTCACATGAGCTA
* *
15301191 CTCGGTATATGGCTCTCATGAGCT
1 CTCGATAT-TGGCTCACATGAGCT
15301215 TCCCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
CTCGATATTGGCTCACATGAGCTA
Found at i:15301444 original size:25 final size:25
Alignment explanation
Indices: 15301391--15301458 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
15301381 TGGCTCACAT
* ** *
15301391 GAGCTTCCCGTTACATGTCTCTCAT
1 GAGCTTCCCGTTACATGGCTCGAAA
*
15301416 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCGAAA
*
15301441 GAGCTTCTCGATTACATG
1 GAGCTTCCCG-TTACATG
15301459 CTCCCATGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCGAAA
Found at i:15301945 original size:201 final size:201
Alignment explanation
Indices: 15301600--15302008 Score: 818
Period size: 201 Copynumber: 2.0 Consensus size: 201
15301590 AATTGTTACC
15301600 TATATGTATATGAAATTTACATGGAAATGATAGTACATGATATATGAAAATTATGAGATAAGTGA
1 TATATGTATATGAAATTTACATGGAAATGATAGTACATGATATATGAAAATTATGAGATAAGTGA
15301665 TACTTGTATGGAACTTGATGGTGAACTTATTCATCCATGATTATGGATTATTATATGTGAATGCT
66 TACTTGTATGGAACTTGATGGTGAACTTATTCATCCATGATTATGGATTATTATATGTGAATGCT
15301730 TGGCTAACATGTCGAGAATATGTGCTTAGGCTTTTGGTCAAGTTGTTGGAATATGTTTTGTATGC
131 TGGCTAACATGTCGAGAATATGTGCTTAGGCTTTTGGTCAAGTTGTTGGAATATGTTTTGTATGC
15301795 TTACTT
196 TTACTT
15301801 TATATGTATATGAAATTTACATGGAAATGATAGTACATGATATATGAAAATTATGAGATAAGTGA
1 TATATGTATATGAAATTTACATGGAAATGATAGTACATGATATATGAAAATTATGAGATAAGTGA
15301866 TACTTGTATGGAACTTGATGGTGAACTTATTCATCCATGATTATGGATTATTATATGTGAATGCT
66 TACTTGTATGGAACTTGATGGTGAACTTATTCATCCATGATTATGGATTATTATATGTGAATGCT
15301931 TGGCTAACATGTCGAGAATATGTGCTTAGGCTTTTGGTCAAGTTGTTGGAATATGTTTTGTATGC
131 TGGCTAACATGTCGAGAATATGTGCTTAGGCTTTTGGTCAAGTTGTTGGAATATGTTTTGTATGC
15301996 TTACTT
196 TTACTT
15302002 TATATGT
1 TATATGT
15302009 GAAATTAATG
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 208 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (201 bp):
TATATGTATATGAAATTTACATGGAAATGATAGTACATGATATATGAAAATTATGAGATAAGTGA
TACTTGTATGGAACTTGATGGTGAACTTATTCATCCATGATTATGGATTATTATATGTGAATGCT
TGGCTAACATGTCGAGAATATGTGCTTAGGCTTTTGGTCAAGTTGTTGGAATATGTTTTGTATGC
TTACTT
Found at i:15303641 original size:3 final size:3
Alignment explanation
Indices: 15303635--15304054 Score: 89
Period size: 3 Copynumber: 138.3 Consensus size: 3
15303625 GAGAGTGTTG
* * * *
15303635 TTA TTA TTA TTA TTA TTA TTA TATA TATA CTA TTA CTG TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA
* * * * * * * *
15303682 TTA TTA TTA GTA GTAA CGTA ATA GTG TTT TTA TTA TT- TCA TTA TTA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
15303728 TT- TT- TTA CCTTT TTA TTA CTA TTA TTA TTAA TCTA CTA TTA TTA TTT
1 TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* * * * **
15303775 TTA TTA ATA -TA GTA TTA TT- TTT TTA -TA TTG TTA TTA TTA TTA GCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
15303820 CGTA -TA TTA TTA TTA TTAA TGTA TCA TTG TTA TTT TCTA TT- TTA TTA
1 -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * *
15303867 TTA CTT- TTA TTA CTA TTG TT- TCTA TTA TTA TTA TT- TTCA TTA CTC
1 TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA
** ** * * * * *
15303912 CCA TTA TTA TTA TCG TTA TTT TCTG TTA TCA TTA ATA TGTCG TT- TGT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A TTA T-TA
* ** * * *
15303959 TTA TTA TTA TTA TTT TTA ACA CTA TTA TCA TCA TTA -TA TTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * *
15304003 TTT TTA ATA TTA TTA TCA TTA -TA TTTA TTA TTA TTA CTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
15304048 TTA TTA T
1 TTA TTA T
15304055 CCGTCCTATT
Statistics
Matches: 302, Mismatches: 82, Indels: 66
0.67 0.18 0.15
Matches are distributed among these distances:
2 28 0.09
3 237 0.78
4 32 0.11
5 5 0.02
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:15303687 original size:35 final size:34
Alignment explanation
Indices: 15303641--15303780 Score: 112
Period size: 35 Copynumber: 4.2 Consensus size: 34
15303631 GTTGTTATTA
15303641 TTATTATTATTATTATATATATACTATTACTGTTT
1 TTATTATTATTATTAT-TATATACTATTACTGTTT
* * *
15303676 TTATTATTATTATTAGTAGTA-ACGTAATAGTGTTT
1 TTATTATTATTATTATTA-TATAC-TATTACTGTTT
* * *
15303711 TTATTATT-TCATTATTAT-T--TTTTAC-CTTT
1 TTATTATTATTATTATTATATACTATTACTGTTT
* * * *
15303740 TTATTACTATTATTATTAATCTACTATTATTATTT
1 TTATTATTATTATTATT-ATATACTATTACTGTTT
15303775 TTATTA
1 TTATTA
15303781 ATATAGTATT
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
29 10 0.12
30 10 0.12
31 2 0.02
32 1 0.01
33 1 0.01
34 15 0.18
35 43 0.52
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (34 bp):
TTATTATTATTATTATTATATACTATTACTGTTT
Found at i:15303798 original size:23 final size:23
Alignment explanation
Indices: 15303741--15303800 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
15303731 TTTACCTTTT
* * *
15303741 TATTACTATTATTATTAATCTAC
1 TATTATTATTTTTATTAATATAC
*
15303764 TATTATTATTTTTATTAATATAG
1 TATTATTATTTTTATTAATATAC
15303787 TATTATT-TTTTTAT
1 TATTATTATTTTTAT
15303801 ATTGTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTATTATTTTTATTAATATAC
Found at i:15303884 original size:80 final size:79
Alignment explanation
Indices: 15303747--15303896 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 79
15303737 TTTTTATTAC
*
15303747 TATTATTATTAATCTACTATTATTATTTTTATTAATATAGTATTATTTTTTTATATTGTTAT-TA
1 TATTATTATTAATCTACTATTATTATTTTTATT-ATATAGTATTATTTTATTATATTGTT-TCTA
15303811 TTATTAGCACGTATAT
64 TTATTAGCACGTATAT
* * *
15303827 TATTATTATTAATGTA-TCATTGTTATTTTCTATT-T-TATTATTACTTTTATTACTATTGTTTC
1 TATTATTATTAATCTACT-ATTATTATTTT-TATTATATAGTATTA-TTTTATTA-TATTGTTTC
15303889 TATTATTA
62 TATTATTA
15303897 TTATTTTCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
78 7 0.11
79 10 0.16
80 40 0.66
81 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (79 bp):
TATTATTATTAATCTACTATTATTATTTTTATTATATAGTATTATTTTATTATATTGTTTCTATT
ATTAGCACGTATAT
Found at i:15305433 original size:9 final size:9
Alignment explanation
Indices: 15305396--15305462 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
15305386 TTGCTTTTAT
15305396 TAAAAATTA
1 TAAAAATTA
*
15305405 T-GAAA-TA
1 TAAAAATTA
*
15305412 TTAAAA-TA
1 TAAAAATTA
15305420 TTAAAAATTA
1 -TAAAAATTA
15305430 TAAAAATTA
1 TAAAAATTA
*
15305439 TAAAAAGCGTA
1 TAAAAA--TTA
15305450 -AAAAATTA
1 TAAAAATTA
15305458 TAAAA
1 TAAAA
15305463 TATATAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 3 0.06
8 10 0.21
9 25 0.53
10 7 0.15
11 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:15305435 original size:18 final size:18
Alignment explanation
Indices: 15305396--15305467 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 18
15305386 TTGCTTTTAT
*
15305396 TAAAAATTAT-GAAATAT
1 TAAAAATTATAAAAATAT
*
15305413 TAAAATATTA-AAAATTA-
1 TAAAA-ATTATAAAAATAT
**
15305430 TAAAAATTATAAAAAGCGT
1 TAAAAATTATAAAAA-TAT
*
15305449 AAAAAATTATAAAATATAT
1 TAAAAATTATAAAA-ATAT
15305468 AAAGATTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
16 4 0.10
17 14 0.34
18 8 0.20
19 14 0.34
20 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:15305710 original size:19 final size:19
Alignment explanation
Indices: 15305688--15305810 Score: 74
Period size: 19 Copynumber: 6.5 Consensus size: 19
15305678 TTTTTTATGT
15305688 TTTTTATAAAATTTTACAA
1 TTTTTATAAAATTTTACAA
* * ** *
15305707 TTTTTTTTATTTTTTAAAA
1 TTTTTATAAAATTTTACAA
**
15305726 TTTTTATAAAAAATT-CTAA
1 TTTTTATAAAATTTTAC-AA
*
15305745 TTTTTA-ATAATTTTA-AA
1 TTTTTATAAAATTTTACAA
* *
15305762 TTTTTTATTAAAATTTAATAA
1 -TTTTTA-TAAAATTTTACAA
* *
15305783 TTTTTCTAAAA-TTTATCAT
1 TTTTTATAAAATTTTA-CAA
15305802 TTTTTATAA
1 TTTTTATAA
15305811 TTTTTTTTCT
Statistics
Matches: 75, Mismatches: 22, Indels: 14
0.68 0.20 0.13
Matches are distributed among these distances:
17 2 0.03
18 14 0.19
19 45 0.60
20 12 0.16
21 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATAAAATTTTACAA
Found at i:15305784 original size:38 final size:38
Alignment explanation
Indices: 15305687--15305787 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 38
15305677 ATTTTTTATG
* ** *
15305687 TTTTTTA-TAAAATTTTACAATTTTTTTTATTTTTTAAA
1 TTTTTTATTAAAA-TTTATAATTTTTAATATATTTTAAA
* * * *
15305725 ATTTTTATAAAAAATTCTAATTTTTAATA-ATTTTAAA
1 TTTTTTATTAAAATTTATAATTTTTAATATATTTTAAA
15305762 TTTTTTATTAAAATTTAATAATTTTT
1 TTTTTTATTAAAATTT-ATAATTTTT
15305788 CTAAAATTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
37 20 0.41
38 25 0.51
39 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (38 bp):
TTTTTTATTAAAATTTATAATTTTTAATATATTTTAAA
Found at i:15308913 original size:31 final size:32
Alignment explanation
Indices: 15308875--15308936 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
15308865 ACAATAATAA
15308875 TCATATTAATAATTT-AAAAAAAAAACGCTGC
1 TCATATTAATAATTTAAAAAAAAAAACGCTGC
15308906 TCATATTAATAATTTAAAAAAAAAAACGCTG
1 TCATATTAATAATTTAAAAAAAAAAACGCTG
15308937 AGAAATAGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.29
Consensus pattern (32 bp):
TCATATTAATAATTTAAAAAAAAAAACGCTGC
Found at i:15316058 original size:37 final size:38
Alignment explanation
Indices: 15316016--15316088 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
15316006 CATTACAAAA
* *
15316016 TTTTAAGATTA-CTTTTTAAGTATACTAACCATTATTT
1 TTTTAAGATTACCTTTTTAAGTATACCAACAATTATTT
15316053 TTTTAAGATTACCTTTTTAAGTATACCAACAATTAT
1 TTTTAAGATTACCTTTTTAAGTATACCAACAATTAT
15316089 ATTTAAAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 11 0.33
38 22 0.67
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (38 bp):
TTTTAAGATTACCTTTTTAAGTATACCAACAATTATTT
Found at i:15317711 original size:13 final size:13
Alignment explanation
Indices: 15317689--15317720 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15317679 TCTAAGAAGC
15317689 AAAA-AAAAAAAA
1 AAAAGAAAAAAAA
15317701 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
15317714 AAAAGAA
1 AAAAGAA
15317721 GAAGCAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAA
Found at i:15317711 original size:16 final size:16
Alignment explanation
Indices: 15317690--15317723 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15317680 CTAAGAAGCA
15317690 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
15317706 AAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAAAG
15317722 AA
1 AA
15317724 GCAGAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:15320027 original size:2 final size:2
Alignment explanation
Indices: 15320020--15320048 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15320010 CCTGACTGAG
15320020 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15320049 TTATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:15331962 original size:24 final size:24
Alignment explanation
Indices: 15331915--15331962 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15331905 AATTAAACAA
* *
15331915 TATGAGTTATTAAATTTAATTAAT
1 TATGAGTTATTAAATTCAACTAAT
*
15331939 TATGGGTTATTAAATTCAACTAAT
1 TATGAGTTATTAAATTCAACTAAT
15331963 CAATTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TATGAGTTATTAAATTCAACTAAT
Found at i:15332111 original size:17 final size:16
Alignment explanation
Indices: 15332083--15332121 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
15332073 GAAATTTAAG
15332083 TATTTTATTAAAATAA
1 TATTTTATTAAAATAA
15332099 TATTTTGATTAAAATAA
1 TATTTT-ATTAAAATAA
*
15332116 AATTTT
1 TATTTT
15332122 TATTTGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TATTTTATTAAAATAA
Found at i:15335211 original size:23 final size:24
Alignment explanation
Indices: 15335172--15335218 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
15335162 CATGGATAGT
15335172 AATAAAAATTATATAAAAATATTC
1 AATAAAAATTATATAAAAATATTC
* *
15335196 AATAAAAATT-TGTAAATATATTC
1 AATAAAAATTATATAAAAATATTC
15335219 TTAATATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAAAATTATATAAAAATATTC
Found at i:15339017 original size:13 final size:13
Alignment explanation
Indices: 15338999--15339026 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15338989 ATTATTGAAC
15338999 GACAAGTAACAAG
1 GACAAGTAACAAG
15339012 GACAAGTAACAAG
1 GACAAGTAACAAG
15339025 GA
1 GA
15339027 ACGACTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.25, T:0.07
Consensus pattern (13 bp):
GACAAGTAACAAG
Found at i:15349842 original size:21 final size:21
Alignment explanation
Indices: 15349812--15349856 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
15349802 ACTTTATCTA
* * *
15349812 TTTTTGAAATTTTTATTTATT
1 TTTTTAAAATTTATATGTATT
15349833 TTTTTAAAATTTATATGTATT
1 TTTTTAAAATTTATATGTATT
15349854 TTT
1 TTT
15349857 AGTAAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTAAAATTTATATGTATT
Found at i:15349863 original size:21 final size:20
Alignment explanation
Indices: 15349810--15349864 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
15349800 TCACTTTATC
* *
15349810 TATTTTTG-AAATTTTTATT
1 TATTTTTGTAAATTTATATG
*
15349829 TATTTTTTTAAAATTTATATG
1 TATTTTTGT-AAATTTATATG
15349850 TATTTTTAGTAAATT
1 TATTTTT-GTAAATT
15349865 CTTACTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.24
21 21 0.72
22 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTTGTAAATTTATATG
Found at i:15351057 original size:14 final size:14
Alignment explanation
Indices: 15351038--15351068 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
15351028 CGCTTCCTCT
15351038 TATAAGCATTTTAA
1 TATAAGCATTTTAA
15351052 TATAAGCATTTTAA
1 TATAAGCATTTTAA
15351066 TAT
1 TAT
15351069 GTATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (14 bp):
TATAAGCATTTTAA
Found at i:15351326 original size:18 final size:18
Alignment explanation
Indices: 15351311--15351364 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
15351301 AATAAAATCA
15351311 AATAATTATTTCAAATAT
1 AATAATTATTTCAAATAT
* *
15351329 CATTATTATTTCAAATATGT
1 AATAATTATTTCAAATA--T
15351349 AA-AA-TATTTCAAATAT
1 AATAATTATTTCAAATAT
15351365 TTCAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.03
18 26 0.87
19 1 0.03
20 2 0.07
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
AATAATTATTTCAAATAT
Found at i:15351362 original size:9 final size:9
Alignment explanation
Indices: 15351335--15351374 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
15351325 ATATCATTAT
15351335 TATTTCAAA
1 TATTTCAAA
* *
15351344 TATGTAAAA
1 TATTTCAAA
15351353 TATTTCAAA
1 TATTTCAAA
15351362 TATTTCAAA
1 TATTTCAAA
15351371 TATT
1 TATT
15351375 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (9 bp):
TATTTCAAA
Found at i:15357461 original size:14 final size:16
Alignment explanation
Indices: 15357437--15357470 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15357427 TCTATTTGAA
15357437 TTTTATGAA-TTTTAG
1 TTTTATGAATTTTTAG
15357452 TTTT-TGAATTTTTAG
1 TTTTATGAATTTTTAG
15357467 TTTT
1 TTTT
15357471 GATTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTTATGAATTTTTAG
Found at i:15361452 original size:25 final size:24
Alignment explanation
Indices: 15361394--15361452 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
15361384 ATCATTTTAA
*
15361394 AATTTAATTTAAAATTATTAGTTAT
1 AATTT-ATTTAAAATTATTAGTGAT
*
15361419 AACTCTATTTAAAATTAAGTT-GTGAT
1 AA-TTTATTTAAAATT-A-TTAGTGAT
15361445 AATTTATT
1 AATTTATT
15361453 AACTCTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 17 0.61
26 9 0.32
27 2 0.07
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (24 bp):
AATTTATTTAAAATTATTAGTGAT
Found at i:15362197 original size:22 final size:24
Alignment explanation
Indices: 15362166--15362212 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
15362156 CAATATTTAT
*
15362166 TTTTTAATTACTATAA-TTAAATA
1 TTTTTAATTAATATAATTTAAATA
*
15362189 TTTTT-ATTAATTTAATTTAAATA
1 TTTTTAATTAATATAATTTAAATA
15362212 T
1 T
15362213 ATTTCATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTAATTAATATAATTTAAATA
Found at i:15369528 original size:18 final size:18
Alignment explanation
Indices: 15369505--15369540 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15369495 ATTGCTGTAG
15369505 ATCGTTCTTCTTAATGTT
1 ATCGTTCTTCTTAATGTT
15369523 ATCGTTCTTCTTAATGTT
1 ATCGTTCTTCTTAATGTT
15369541 TTGCATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (18 bp):
ATCGTTCTTCTTAATGTT
Found at i:15372090 original size:130 final size:130
Alignment explanation
Indices: 15371855--15372226 Score: 424
Period size: 130 Copynumber: 2.9 Consensus size: 130
15371845 AAAATTCTTC
* * * * * *
15371855 AAAATGAAGGCGAAATTTGATGTTCGGCGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
15371920 TTTCGTATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATTTTTTAAAATCCCT
66 TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * *
15371985 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGATGGGTTGCAA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
** * ** * * *
15372050 TTTCGCATTTGTTCAAAATAATCGAATATCATTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
15372115 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCAGG-ATTGTGCCCTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAGATTTGATGTTTGGCAATTCGC-GGAATTGTGCCCTAACGTGTTGGGTTGCA
* * *
15372179 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
65 ATTTCGC-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
15372227 GGCTCTTCTA
Statistics
Matches: 201, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
130 198 0.99
131 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (130 bp):
AAAACGAAGACGAGATTTGATGTTTGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:15373700 original size:22 final size:24
Alignment explanation
Indices: 15373664--15373707 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15373654 CTTATGTGTT
*
15373664 TATATTATATATTATAATAAATAA
1 TATATTATATATTATAAAAAATAA
15373688 TATATT-TAT-TTATAAAAAAT
1 TATATTATATATTATAAAAAAT
15373708 GTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTATATATTATAAAAAATAA
Found at i:15373713 original size:22 final size:22
Alignment explanation
Indices: 15373663--15373721 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
15373653 ACTTATGTGT
*
15373663 TTATATTATATATTATAATAAATA
1 TTATATT-TAT-TTATAAAAAATA
* *
15373687 ATATATTTATTTATAAAAAATG
1 TTATATTTATTTATAAAAAATA
15373709 TTATAATTT-TTTA
1 TTAT-ATTTATTTA
15373722 CTATAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 17 0.57
23 7 0.23
24 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTATATTTATTTATAAAAAATA
Found at i:15373810 original size:16 final size:16
Alignment explanation
Indices: 15373791--15373821 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15373781 AATCTTTTTT
15373791 TTATAAAACTTATATA
1 TTATAAAACTTATATA
*
15373807 TTATAAAATTTATAT
1 TTATAAAACTTATAT
15373822 TTTTCACTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAAAACTTATATA
Found at i:15374801 original size:24 final size:24
Alignment explanation
Indices: 15374773--15374821 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15374763 TTTACATGCT
15374773 TCAGACCCTAGGTTTAGAAAAACA
1 TCAGACCCTAGGTTTAGAAAAACA
15374797 TCAGACCCTAGGTTTAGAAAAACA
1 TCAGACCCTAGGTTTAGAAAAACA
15374821 T
1 T
15374822 ACATCTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.22
Consensus pattern (24 bp):
TCAGACCCTAGGTTTAGAAAAACA
Found at i:15377642 original size:2 final size:2
Alignment explanation
Indices: 15377635--15377659 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15377625 AGCGAAAAAT
15377635 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15377660 TGGAGAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15377788 original size:3 final size:3
Alignment explanation
Indices: 15377769--15377811 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
15377759 ATGAAGTTTG
* *
15377769 TGA TGA TCA TGA AGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
15377812 AAGAAAGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:15387493 original size:69 final size:69
Alignment explanation
Indices: 15387410--15387551 Score: 239
Period size: 69 Copynumber: 2.1 Consensus size: 69
15387400 CTGTTCTAGA
**
15387410 TGAAAGTACAAGTACTATGACTGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
1 TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
15387475 CAGT
66 CAGT
* * *
15387479 TGAAAGTAGAAGTACTATGAAGGATTCTCTAGTGGTGTTGGATGAGGATTCACCAACCATGGATG
1 TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
15387544 CAGT
66 CAGT
15387548 TGAA
1 TGAA
15387552 GTTGCCATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (69 bp):
TGAAAGTACAAGTACTATGAAGGATTCTCTAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
CAGT
Found at i:15390042 original size:34 final size:34
Alignment explanation
Indices: 15389965--15390032 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
15389955 TTTTACGATA
*
15389965 GTAAAAAT-ATAATTTCATCACTTTAATAGTATC
1 GTAAAAATAATAATTTCATCACTTTAATACTATC
15389998 GTAAAAATAATAATTTCATCACTTTAATATCTATC
1 GTAAAAATAATAATTTCATCACTTTAATA-CTATC
15390033 TCTTTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 8 0.25
34 20 0.62
35 4 0.12
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (34 bp):
GTAAAAATAATAATTTCATCACTTTAATACTATC
Found at i:15416188 original size:22 final size:22
Alignment explanation
Indices: 15416137--15416181 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15416127 TAACTTAAAT
*
15416137 AAAACTTTTAAATAGTTCAATG
1 AAAATTTTTAAATAGTTCAATG
*
15416159 AAAATTTTTAAATAGTTTAATG
1 AAAATTTTTAAATAGTTCAATG
15416181 A
1 A
15416182 CCATTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (22 bp):
AAAATTTTTAAATAGTTCAATG
Found at i:15417917 original size:21 final size:21
Alignment explanation
Indices: 15417859--15417928 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
15417849 ATTAAATACA
15417859 AATAAATTATA-TTTTTATA-
1 AATAAATTATATTTTTTATAT
*
15417878 AA-AATATTTTTATCTTTTTATAT
1 AATAA-A-TTATAT-TTTTTATAT
15417901 AATAAATTATATTTTTTATCAT
1 AATAAATTATATTTTTTAT-AT
15417923 AATAAA
1 AATAAA
15417929 ATTTGAACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 4 0.10
21 7 0.17
22 21 0.50
23 3 0.07
24 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
AATAAATTATATTTTTTATAT
Found at i:15417917 original size:22 final size:22
Alignment explanation
Indices: 15417859--15417928 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 22
15417849 ATTAAATACA
* *
15417859 AATAAATTATATTTTTATA-AA
1 AATAAATTATATTTTTTTATAT
* * *
15417880 AAT-ATTTTTATCTTTTTATAT
1 AATAAATTATATTTTTTTATAT
15417901 AATAAATTATA-TTTTTTATCAT
1 AATAAATTATATTTTTTTAT-AT
15417923 AATAAA
1 AATAAA
15417929 ATTTGAACTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 11 0.29
21 14 0.37
22 13 0.34
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (22 bp):
AATAAATTATATTTTTTTATAT
Found at i:15418289 original size:21 final size:21
Alignment explanation
Indices: 15418263--15418318 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
15418253 AATAGCAGTG
* *
15418263 GCGGTGAAATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
15418284 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
15418305 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
15418319 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:15433551 original size:30 final size:30
Alignment explanation
Indices: 15433515--15433571 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
15433505 ACCATGATGG
* *
15433515 GGTGAAACTGAAGCAGGAGAAACAGGCTGA
1 GGTGAAACAGAACCAGGAGAAACAGGCTGA
* *
15433545 GGTGAAACAGAACCAGGTGAAGCAGGC
1 GGTGAAACAGAACCAGGAGAAACAGGC
15433572 AGGTATTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.37, T:0.09
Consensus pattern (30 bp):
GGTGAAACAGAACCAGGAGAAACAGGCTGA
Found at i:15444544 original size:6 final size:6
Alignment explanation
Indices: 15444523--15444609 Score: 88
Period size: 6 Copynumber: 14.8 Consensus size: 6
15444513 CGGCTACACA
* * *
15444523 AATTTT GATTTT --TTTT AATTTT AATTTT AATTTT AGTTTT AGTTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* * * * *
15444569 AGTTTT AGTTTT AGTTTT AGTTTT AGTTTT AATTTT AATTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTT
15444610 ATTAAATGGT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
4 4 0.05
6 72 0.95
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (6 bp):
AATTTT
Found at i:15444552 original size:12 final size:12
Alignment explanation
Indices: 15444535--15444605 Score: 106
Period size: 12 Copynumber: 5.9 Consensus size: 12
15444525 TTTTGATTTT
*
15444535 TTTTAATTTTAA
1 TTTTAATTTTAG
15444547 TTTTAATTTTAG
1 TTTTAATTTTAG
*
15444559 TTTTAGTTTTAG
1 TTTTAATTTTAG
*
15444571 TTTTAGTTTTAG
1 TTTTAATTTTAG
*
15444583 TTTTAGTTTTAG
1 TTTTAATTTTAG
15444595 TTTTAATTTTA
1 TTTTAATTTTA
15444606 ATTTATTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 56 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (12 bp):
TTTTAATTTTAG
Found at i:15444562 original size:18 final size:18
Alignment explanation
Indices: 15444535--15444609 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
15444525 TTTTGATTTT
*
15444535 TTTTAATTTTAATTTTAA
1 TTTTAGTTTTAATTTTAA
* *
15444553 TTTTAGTTTTAGTTTTAG
1 TTTTAGTTTTAATTTTAA
* *
15444571 TTTTAGTTTTAGTTTTAG
1 TTTTAGTTTTAATTTTAA
15444589 TTTTAGTTTTAATTTTAA
1 TTTTAGTTTTAATTTTAA
15444607 TTT
1 TTT
15444610 ATTAAATGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
TTTTAGTTTTAATTTTAA
Found at i:15448366 original size:6 final size:6
Alignment explanation
Indices: 15448357--15448382 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15448347 CACCGTAAGG
15448357 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
15448383 CAGGTACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:15449333 original size:18 final size:17
Alignment explanation
Indices: 15449306--15449342 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
15449296 ATTCTTTATT
*
15449306 TTATTAATATATTATAA
1 TTATTAATATAATATAA
15449323 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
15449341 TT
1 TT
15449343 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:15456844 original size:92 final size:92
Alignment explanation
Indices: 15456687--15456869 Score: 339
Period size: 92 Copynumber: 2.0 Consensus size: 92
15456677 AGTTGTTTAT
*
15456687 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGTTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
15456752 GATGAGATGGAGATGACTAGCACAGCC
66 GATGAGATGGAGATGACTAGCACAGCC
* *
15456779 ATTATTAGATGAATTTAGCTGCATCTATGTATCTGTATGATGCTTTTATTCTGTTGCTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
15456844 GATGAGATGGAGATGACTAGCACAGC
66 GATGAGATGGAGATGACTAGCACAGC
15456870 TATGAAAGAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (92 bp):
ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGATGCTTTTATTCTGTTGCTCATGATG
GATGAGATGGAGATGACTAGCACAGCC
Found at i:15467319 original size:16 final size:16
Alignment explanation
Indices: 15467298--15467349 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
15467288 TTTGGTTCGC
15467298 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15467314 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15467330 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15467346 TGTA
1 TGTA
15467350 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15467414 original size:44 final size:45
Alignment explanation
Indices: 15467330--15467420 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
15467320 GGATTAGAGG
* * *
15467330 TGTATTGGATTAGAGGTGTAATAGCTAATCCATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGGTTGAA
*
15467375 TGTAATGGAATAGAGGCGTAATAG-TAAT-CTTATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCAT-TGTTTGGTTGAA
15467419 TG
1 TG
15467421 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 18 0.44
45 21 0.51
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCATTGTTTGGTTGAA
Found at i:15467672 original size:157 final size:157
Alignment explanation
Indices: 15467472--15467788 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
15467462 TAGAATACCC
*
15467472 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
15467537 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
15467602 ATATATAATTTAATAAAATTCTT-ATAA
130 ATATATAATTTAATAAAATTCTTAATAA
* *
15467629 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
15467694 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
15467759 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
15467786 TTA
1 TTA
15467789 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 24 0.16
157 128 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:15467759 original size:16 final size:16
Alignment explanation
Indices: 15467722--15467763 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15467712 TTAATCATAT
*
15467722 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
15467738 TT-AAATATATTATAA
1 TTAAAATATATTATAA
15467753 TTAAAATATAT
1 TTAAAATATAT
15467764 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:15467770 original size:14 final size:15
Alignment explanation
Indices: 15467731--15467772 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15467721 TTTAAACATA
*
15467731 ATTATTATTAAATAT
1 ATTATAATTAAATAT
15467746 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
15467760 A-TATAATTTAATA
1 ATTATAATTAAATA
15467773 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:15476688 original size:29 final size:29
Alignment explanation
Indices: 15476623--15476681 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
15476613 TGCAGATAGT
* *
15476623 AAAAAAGTAGATTTAGAGATGCGTATGGA
1 AAAAAAGTAGATATAGAGATGCATATGGA
15476652 AAAAAAGTAAGATATAGAGATGCATATGGA
1 AAAAAAGT-AGATATAGAGATGCATATGGA
15476682 TCAAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.49, C:0.03, G:0.25, T:0.22
Consensus pattern (29 bp):
AAAAAAGTAGATATAGAGATGCATATGGA
Found at i:15482769 original size:16 final size:15
Alignment explanation
Indices: 15482745--15482778 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15482735 ACACCGCAAC
*
15482745 AAAAAATAATAAACA
1 AAAAAATAAGAAACA
15482760 AAAAACATAAGAAACA
1 AAAAA-ATAAGAAACA
15482776 AAA
1 AAA
15482779 TATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAATAAGAAACA
Found at i:15484390 original size:47 final size:47
Alignment explanation
Indices: 15484321--15484414 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
15484311 GGTGGGGTGG
*
15484321 GGGTGTTGTTTAATATTAAAACACCATTCATGTGTCGACGTCTGTAT
1 GGGTGTTGTTTAATATTAAAACACCATTCATGTGTCCACGTCTGTAT
15484368 GGGTGTTGTTTAATATTAAAACACCATTCATGTGTCCACGTCTGTAT
1 GGGTGTTGTTTAATATTAAAACACCATTCATGTGTCCACGTCTGTAT
15484415 TGTCATTCAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (47 bp):
GGGTGTTGTTTAATATTAAAACACCATTCATGTGTCCACGTCTGTAT
Found at i:15488784 original size:3 final size:3
Alignment explanation
Indices: 15488776--15488803 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15488766 TAAACCTTAA
15488776 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC A
15488804 GCAAGCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:15500655 original size:14 final size:15
Alignment explanation
Indices: 15500636--15500664 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15500626 TGAATTTAGC
15500636 AGTTAAA-TTTATTA
1 AGTTAAATTTTATTA
15500650 AGTTAAATTTTATTA
1 AGTTAAATTTTATTA
15500665 TTCATCTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
AGTTAAATTTTATTA
Found at i:15502757 original size:47 final size:48
Alignment explanation
Indices: 15502658--15502758 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 48
15502648 CCCCCTCCCA
*
15502658 TCCCTC-TCCCTTTTCCCCACCATCCCTTCCCCTACTCTGGTTCTCTC
1 TCCCTCTTCCCTTTTCCCCACCATCCCTTCCCCTACTCTGATTCTCTC
* * *
15502705 TCCCTCTTCCCTTCTTCCCTACCATCCC-TCCTCTTATTCTGATTCT-T-
1 TCCCTCTTCCCTT-TTCCCCACCATCCCTTCC-CCTACTCTGATTCTCTC
15502752 TCCCTCT
1 TCCCTCT
15502759 CCTCCACCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 13 0.28
48 10 0.21
49 24 0.51
ACGTcount: A:0.07, C:0.50, G:0.03, T:0.41
Consensus pattern (48 bp):
TCCCTCTTCCCTTTTCCCCACCATCCCTTCCCCTACTCTGATTCTCTC
Found at i:15503480 original size:84 final size:84
Alignment explanation
Indices: 15503337--15503507 Score: 270
Period size: 84 Copynumber: 2.0 Consensus size: 84
15503327 ATGGCTGAAC
* * *
15503337 CACACGCCCGTGTGCTAGACCATGTGCCCATTTGAAATAGCCTTTCACACTTGTATGCTAGCCAT
1 CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
15503402 GTGTCTCACATGGCCCAGT
66 GTGTCTCACATGGCCCAGT
* * *
15503421 CACACGCCCGTGTGCTAGACCATGTGCCCCTTCGAAATAGCCTCTCACGCTTGGGTGCTAGCCAT
1 CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
* *
15503486 GTGTCTTACATGGTCCAGT
66 GTGTCTCACATGGCCCAGT
15503505 CAC
1 CAC
15503508 TCAAAATGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (84 bp):
CACACGCCCGTGTGCTAGACCATGTGCCCATTCGAAATAGCCTCTCACACTTGGATGCTAGCCAT
GTGTCTCACATGGCCCAGT
Found at i:15504971 original size:11 final size:10
Alignment explanation
Indices: 15504950--15505002 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
15504940 TTTTTCCCTT
15504950 TTTCTTTTTC
1 TTTCTTTTTC
15504960 TTTCTTTCTTC
1 TTTCTTT-TTC
*
15504971 TTTCTGTTTC
1 TTTCTTTTTC
*
15504981 GTTTCTATCTTTA
1 -TTTCT-T-TTTC
15504994 TTTCTTTTT
1 TTTCTTTTT
15505003 ATTACTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 13 0.36
11 15 0.42
12 5 0.14
13 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:15504985 original size:22 final size:21
Alignment explanation
Indices: 15504950--15504991 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15504940 TTTTTCCCTT
* *
15504950 TTTCTTTTTCTTTCTTTCTTC
1 TTTCTGTTTCTTTCTATCTTC
15504971 TTTCTGTTTCGTTTCTATCTT
1 TTTCTGTTTC-TTTCTATCTT
15504992 TATTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTCTGTTTCTTTCTATCTTC
Found at i:15505921 original size:30 final size:30
Alignment explanation
Indices: 15505887--15505954 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
15505877 AGAGGGATGG
*
15505887 AAAATGGTAGTT-TGGTTAAGCCTATAACGT
1 AAAATGGTAGTTCT-GTTAAGCCTATAACGA
* * *
15505917 AAAATAGTAGTTCTGTTACGCTTATAACGA
1 AAAATGGTAGTTCTGTTAAGCCTATAACGA
15505947 AAAATGGT
1 AAAATGGT
15505955 TAGTGGTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (30 bp):
AAAATGGTAGTTCTGTTAAGCCTATAACGA
Found at i:15506770 original size:11 final size:11
Alignment explanation
Indices: 15506754--15506779 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15506744 AAGGGTATCC
15506754 TTTTGCTTTAG
1 TTTTGCTTTAG
15506765 TTTTGCTTTAG
1 TTTTGCTTTAG
15506776 TTTT
1 TTTT
15506780 TAAATAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTTGCTTTAG
Found at i:15508312 original size:11 final size:11
Alignment explanation
Indices: 15508298--15508337 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15508288 ATTTTCTCCA
15508298 TATTTTGCTAC
1 TATTTTGCTAC
* *
15508309 TATTTTACTAT
1 TATTTTGCTAC
*
15508320 TATATTGCTAC
1 TATTTTGCTAC
15508331 TATTTTG
1 TATTTTG
15508338 TTGTTATCTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.07, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:15508410 original size:30 final size:30
Alignment explanation
Indices: 15508374--15508438 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
15508364 ACTTATTTTA
*
15508374 TTGTTAATTTTTTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
15508404 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
15508434 TTGTT
1 TTGTT
15508439 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:15508540 original size:18 final size:18
Alignment explanation
Indices: 15508519--15508557 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15508509 GAAATATTTA
*
15508519 TTTGAT-GTTTTTAGTATT
1 TTTGATGGTTTATA-TATT
15508537 TTTGATGGTTTATATATT
1 TTTGATGGTTTATATATT
15508555 TTT
1 TTT
15508558 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (18 bp):
TTTGATGGTTTATATATT
Found at i:15508557 original size:19 final size:18
Alignment explanation
Indices: 15508512--15508558 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
15508502 TTGTTAAGAA
*
15508512 ATATTTATTTGATGTTTTT
1 ATATTT-TTTGATGTTTAT
15508531 AGTA-TTTTTGATGGTTTAT
1 A-TATTTTTTGAT-GTTTAT
15508550 ATATTTTTT
1 ATATTTTTT
15508559 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
ATATTTTTTGATGTTTAT
Found at i:15508580 original size:12 final size:12
Alignment explanation
Indices: 15508559--15508592 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15508549 TATATTTTTT
*
15508559 AAAATTATATAA
1 AAAATAATATAA
15508571 AAAATAATATAA
1 AAAATAATATAA
*
15508583 AAATTAATAT
1 AAAATAATAT
15508593 GGGCTAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:15510199 original size:29 final size:30
Alignment explanation
Indices: 15510157--15510219 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
15510147 TGTAGTAAAT
*
15510157 AAGATAAGTTCTCAATTAGATTAACGTG-G
1 AAGATAAGTTCTCAATTACATTAACGTGAG
* *
15510186 AAGATAAGTTCTCAGTTACATTAATGTGAG
1 AAGATAAGTTCTCAATTACATTAACGTGAG
15510216 AAGA
1 AAGA
15510220 ATATTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (30 bp):
AAGATAAGTTCTCAATTACATTAACGTGAG
Found at i:15511865 original size:13 final size:14
Alignment explanation
Indices: 15511843--15511879 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
15511833 TTTTTATCAT
15511843 ATATTAAAATAAAA
1 ATATTAAAATAAAA
15511857 ATATT-AAATAAAA
1 ATATTAAAATAAAA
*
15511870 A-ATAAAAATA
1 ATATTAAAATA
15511880 CTTTGAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 2 0.10
13 14 0.67
14 5 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATTAAAATAAAA
Found at i:15516471 original size:11 final size:11
Alignment explanation
Indices: 15516457--15516501 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
15516447 AGATAAATAT
15516457 TATTTTATTAA
1 TATTTTATTAA
*
15516468 TATTTTAATAATA
1 TATTTT-ATTA-A
*
15516481 TATTTTATTAT
1 TATTTTATTAA
15516492 TATTTTATTA
1 TATTTTATTA
15516502 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:15516484 original size:24 final size:24
Alignment explanation
Indices: 15516452--15516507 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
15516442 TAATTAGATA
15516452 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
15516477 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
15516501 AGTATAT
1 AATATAT
15516508 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:15518692 original size:38 final size:41
Alignment explanation
Indices: 15518642--15518807 Score: 167
Period size: 46 Copynumber: 3.9 Consensus size: 41
15518632 CTGATATGAA
15518642 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T-G
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
15518681 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT-AG
* *
15518726 ATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CAT-AG
* ** *
15518772 AAGAATAAGACCATGGTTGAAAGATACCGTGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15518808 ATGACAGAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
38 36 0.33
43 1 0.01
45 1 0.01
46 69 0.64
50 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
Found at i:15518748 original size:46 final size:46
Alignment explanation
Indices: 15518684--15518851 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 46
15518674 CAACCTGTGT
* * * *
15518684 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* * *
15518730 GTAAGACCGTGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
15518776 ATAAGACCATGGTTGAAAGATACCGTGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
15518822 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
15518852 TCACGTCAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 104 0.99
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:15520087 original size:21 final size:23
Alignment explanation
Indices: 15520053--15520099 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
15520043 TAAAAATTAT
*
15520053 AAAAATACTCTTTAAAATTAAAA
1 AAAAATACTCTTTAAAAATAAAA
15520076 AAAAATA-T-TTTAAAAATAAAA
1 AAAAATACTCTTTAAAAATAAAA
15520097 AAA
1 AAA
15520100 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 1 0.04
23 7 0.30
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATACTCTTTAAAAATAAAA
Found at i:15537191 original size:21 final size:21
Alignment explanation
Indices: 15537165--15537205 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15537155 ATCTGCTCAA
* *
15537165 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15537186 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15537206 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15540056 original size:30 final size:33
Alignment explanation
Indices: 15539985--15540050 Score: 80
Period size: 36 Copynumber: 1.9 Consensus size: 33
15539975 TGGTTGTCAT
*
15539985 TATTGATTGTCTCCCATTAATGTTAATGGCAACCA
1 TATTAATTGTCTCCCATTAATGTTAA--GCAACCA
*
15540020 TTATTAATTGTCTTCCATTAATGTTAA-CAAC
1 -TATTAATTGTCTCCCATTAATGTTAAGCAAC
15540051 TATTAACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
36 24 0.86
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (33 bp):
TATTAATTGTCTCCCATTAATGTTAAGCAACCA
Done.